Genomes and Genes
Jean Pierre Vartanian
Affiliation: Institut Pasteur
- Lethal mutagenesis of foot-and-mouth disease virus involves shifts in sequence spaceCelia Perales
Centro de Biologia Molecular Severo Ochoa CSIC UAM, Consejo Superior de Investigaciones Cientificas, Campus de Cantoblanco, 28049 Madrid, Spain
J Virol 85:12227-40. 2011..Thus, even nonmutagenized FMDV quasispecies include a deep, mutationally biased portion of sequence space, in support of the view that the virus replicates close to the error threshold for maintenance of genetic information...
- Massive APOBEC3 editing of hepatitis B viral DNA in cirrhosisJean Pierre Vartanian
Molecular Retrovirology Unit, Institut Pasteur, Paris, France
PLoS Pathog 6:e1000928. 2010..Although the mutant spectrum resulting from A3 editing is highly deleterious, a very small part, notably the lightly edited genomes, might help the virus evolve and even escape immune responses...
- Recovery of APOBEC3-edited human immunodeficiency virus G->A hypermutants by differential DNA denaturation PCRRodolphe Suspène
Unite de Retrovirologie Moleculaire, Institut Pasteur, 28 rue du Dr Roux, 75724 Paris Cedex 15, France
J Gen Virol 86:125-9. 2005....
- Evolution of the primate APOBEC3A cytidine deaminase gene and identification of related coding regionsMichel Henry
Molecular Retrovirology Unit, Institut Pasteur, Paris, France
PLoS ONE 7:e30036. 2012..This qualitative and quantitative variation among primate A3A genes suggest that subtle differences in function might ensue as more light is shed on this increasingly important enzyme...
- Human Tribbles 3 protects nuclear DNA from cytidine deamination by APOBEC3AMarie Ming Aynaud
Molecular Retrovirology Unit, CNRS URA3015, Institut Pasteur, 28 rue du Dr Roux, F 75724 Paris Cedex 15, France
J Biol Chem 287:39182-92. 2012..TRIB3 has been linked to cancer and via its own interactors and links the A3A DNA mutators to the Rb-BRCA1-ATM network. TRIB3 emerges as an important guardian of genome integrity...
- Genetic editing of herpes simplex virus 1 and Epstein-Barr herpesvirus genomes by human APOBEC3 cytidine deaminases in culture and in vivoRodolphe Suspène
Molecular Retrovirology Unit, Institut Pasteur, CNRS URA 3015, 28 rue du Dr Roux, 75724 Paris Cedex 15, France
J Virol 85:7594-602. 2011..That the A3C gene is not induced by type I interferons begs the question whether some herpesviruses encode A3C antagonists...
- Death and the retrovirusJean Pierre Vartanian
Unite de Retrovirologie Moleculaire, Institut Pasteur, 28 rue du Dr Roux, 75724 Cedex 15, Paris, France
Trends Mol Med 9:409-13. 2003..This death mechanism is circumvented by the HIV viral infectivity factor protein, which prevents APOBEC3G from entering the virion...
- Somatic hypermutation of human mitochondrial and nuclear DNA by APOBEC3 cytidine deaminases, a pathway for DNA catabolismRodolphe Suspène
Institut Pasteur, Molecular Retrovirology Unit, Centre National de la Recherche Scientifique URA3015, 75724 Paris Cedex 15, France
Proc Natl Acad Sci U S A 108:4858-63. 2011..Nonetheless, hyper- and lightly mutated sequences went hand in hand, raising the hypothesis that recurrent low-level mutation by APOBEC3A could catalyze the transition from a healthy to a cancer genome...
- APOBEC3G is a single-stranded DNA cytidine deaminase and functions independently of HIV reverse transcriptaseRodolphe Suspène
Unite de Retrovirologie Moleculaire, Institut Pasteur, 28 rue du Docteur Roux, 75724 Paris Cedex 15, France
Nucleic Acids Res 32:2421-9. 2004..APOBEC3G deamination of dC or dCTP was not detected. In short, APOBEC3G is a single-stranded DNA cytidine deaminase capable of restricting retroviral replication...
- Twin gradients in APOBEC3 edited HIV-1 DNA reflect the dynamics of lentiviral replicationRodolphe Suspène
Unite de Retrovirologie Moleculaire, CNRS URA1930, Institut Pasteur, 28 rue du Dr Roux, 75724 Paris Cedex 15, France
Nucleic Acids Res 34:4677-84. 2006..The degree of hypermutation varied smoothly among genomes indicating that the number of APOBEC3 molecules packaged varied considerably...
- APOBEC1 and APOBEC3 cytidine deaminases as restriction factors for hepadnaviral genomes in non-humans in vivoMyrtille Renard
Molecular Retrovirology Unit, Institut Pasteur, CNRS URA 3015, 28 rue de Dr Roux, 75724 Paris Cedex 15, France
J Mol Biol 400:323-34. 2010..There seems to be more genetic editing in liver or cell-associated genomes than serum or culture supernatants, suggesting that too much editing of virion cDNA might impede completion of DNA synthesis...
- Human APOBEC1 cytidine deaminase edits HBV DNAMinerva Cervantes Gonzalez
Molecular Retrovirology Unit, Virology Department, Institut Pasteur, 28 rue du Dr Roux 75724 Paris Cedex 15, France
Retrovirology 6:96. 2009..Analysis of sequences derived from the serum of two chronic carriers, indicated that hA1 explained only a small fraction of edited HBV genomes. By contrast, several human APOBEC3 deaminases were active including hA3G...
- Identification of a hepatitis B virus genome in wild chimpanzees (Pan troglodytes schweinfurthi) from East Africa indicates a wide geographical dispersion among equatorial African primatesJean Pierre Vartanian
Unite de Retrovirologie Moleculaire, Institut Pasteur, Paris, France
J Virol 76:11155-8. 2002..An entire hepatitis B virus (HBV) genome was amplified and sequenced from samples taken from one animal. This indicates that HBV is distributed across the entire range of chimpanzee habitats...
- Double-stranded RNA adenosine deaminase ADAR-1-induced hypermutated genomes among inactivated seasonal influenza and live attenuated measles virus vaccinesRodolphe Suspène
Molecular Retrovirology Unit, Institut Pasteur, Paris Cedex 15, France
J Virol 85:2458-62. 2011..The hyperedited mutant frequency, including genomes and antigenomes, was a log greater for influenza virus compared to measles virus, suggesting a greater sensitivity to restriction by ADAR-1...
- Murine APOBEC1 is a powerful mutator of retroviral and cellular RNA in vitro and in vivoVincent Petit
Unite de Retrovirologie Moleculaire, CNRS URA, Institut Pasteur, Paris, France
J Mol Biol 385:65-78. 2009..In short, murine APOBEC1 is a hypermutator of both RNA and ssDNA in vivo, which could exert occasional side effects upon overexpression...
- Anti-termination by SIV Tat requires flexibility of the nascent TAR structurePeter Sommer
Unite de Retrovirologie Moleculaire, Pasteur Institute, 28 rue du Dr Roux, 75724 Paris, France
J Mol Biol 344:11-28. 2004..These results show that HIV/SIV replication requires only a minimal set of cis-acting elements in the promoter and suggest a hitherto unrecognised requirement of flexibility for the nascent TAR structure to allow anti-termination by Tat...
- Genetic editing of HBV DNA by monodomain human APOBEC3 cytidine deaminases and the recombinant nature of APOBEC3GMichel Henry
Molecular Retrovirology Unit, CNRS URA 3015, Institut Pasteur, Paris, France
PLoS ONE 4:e4277. 2009..A phylogenic analysis of A3 exons revealed that A3G is in fact a chimera with the first two exons being derived from the A3F gene. This might allow co-expression of the two genes that are able to restrict HIV-1Deltavif efficiently...
- Evidence for editing of human papillomavirus DNA by APOBEC3 in benign and precancerous lesionsJean Pierre Vartanian
Molecular Retrovirology Unit, Institut Pasteur, 28 Rue de Docteur Roux, 75724 Paris Cedex 15, France
Science 320:230-3. 2008..Thus, stochastic or transient overexpression of APOBEC3 genes may expose the genome to a broad spectrum of mutations that could influence the development of tumors...
- Inversing the natural hydrogen bonding rule to selectively amplify GC-rich ADAR-edited RNAsRodolphe Suspène
Unite de Retrovirologie Moleculaire, CNRS URA 3015, Unité de Génétique Moléculaire des Bunyaviridés and Laboratoire de Génomique Virale et Vaccination, Institut Pasteur, 28 rue du Dr Roux, 75724 Paris Cedex 15
Nucleic Acids Res 36:e72. 2008..The editing of Alu elements in cellular mRNAs was strongly enhanced by type I interferon induction indicating a novel link mRNA metabolism and innate immunity...
- Restriction of foamy viruses by APOBEC cytidine deaminasesFrédéric Delebecque
Virus and Immunity Group, URA CNRS 1930, Institut Pasteur, 75724 Paris Cedex 15, France
J Virol 80:605-14. 2006..In infected hosts, the persistence strategy employed by FV might be based on low levels of replication, as well as avoidance of cells expressing large amounts of active cytidine deaminases...
- Network analysis of human and simian immunodeficiency virus sequence sets reveals massive recombination resulting in shorter pathwaysSimon Wain-Hobson
Unite de Retrovirologie Moleculaire, Institut Pasteur, F 75724 Paris Cedex 15, France
J Gen Virol 84:885-95. 2003..Hence, lineages are younger than anticipated previously, although not in proportion to the ratio of the intrinsic recombination/point mutation rate. Recombination also inflates codon polymorphisms...
- A universal primer set for PCR amplification of nuclear histone H4 genes from all animal speciesPascal Pineau
Unité d Organisation Nucléaire et Oncogénèse, INSERM U579, Institut Pasteur, Paris, France
Mol Biol Evol 22:582-8. 2005..The data indicate that the HIST2H4 amplimers are, thus, suitable for both DNA quality testing as well as species identification in the animal kingdom...
- Hyperediting of human T-cell leukemia virus type 2 and simian T-cell leukemia virus type 3 by the dsRNA adenosine deaminase ADAR-1Nga Ling Ko
Epidemiology and Physiopathology of Oncogenic Viruses, Institut Pasteur, CNRS URA 3015, 28 rue du Dr Roux, 75724 Paris Cedex 15, France
J Gen Virol 93:2646-51. 2012..In conclusion, the present observations demonstrate that ADAR-1 massively edits HTLV-2 and STLV-3 retroviruses in vitro, but probably remains a rare phenomenon in vivo...
- Powerful mutators lurking in the genomeVincent Petit
Molecular Retrovirology Unit, CNRS URA 3015, Institut Pasteur, 28 rue du Docteur Roux, 75724 Paris Cedex 15, France
Philos Trans R Soc Lond B Biol Sci 364:705-15. 2009..For the APOBEC3 genes, not only is their physiological function unknown, but also their role in the induction of cancer remains to be determined. Yet given the pace of research, all this is certain to change in the next few years...
- Induction of mutations in Drosophila melanogaster gypsy retroelements by modulation of intracellular deoxynucleoside triphosphate pools in vivoChristophe Terzian
Unite de Retrovirologie Moleculaire, CNRS URA 3015, Institut Pasteur, 28 rue du Dr Roux, F 75724 Paris Cedex 15, France
J Virol 81:4900-3. 2007..Due to the lack of proofreading, these gypsy elements represent hypervariable loci within the Drosophila genome, suggesting that dNTP pool imbalances in vivo are mutagenic...